One difference is the power supply handling that the SAM3 has, it can shut down an external regulator (using it's SHDN pin) thus turning itself and anything else completely off with the exception of the smallest amount of hardware used to monitor various wakeup sources.
That's a great feature and it's not available on the LPCs.
OTOH the LPCs have 8 and 16-byte FIFOs on the serial peripherals. I think that's a good feature.
Off the top of my head some differences are
LPC has
4032 bytes of EEPROM
LCD controller
3 I2C
CRC engine
SAM has
DAC
2 I2C
True random number generator
Overall I think the LPC wins but of course it depends on what you need.
One thing is for sure the LPC forum is nowhere near as active as this one. You do get answers there though so it's good in that way.
The Due will be better productised than the Xpressos for sure, that said I recently downloaded the LPC Xpresso IDE and had a working (well compiling, I have no hardware) program with multiple files (one of which was some assembly language) in minutes. So for anyone that's at least semi-experienced (and beginners don't need either platform) I think the Xpresso environment seems to be a winner and the hardware is 2-3x cheaper than what I assume the Due will cost. Admittedly I don't think the Xpresso boards have USB once you break them from the LPC Link debugger although that's probably just a couple of resistors.
Another thing about the LPCs is the range of processors, you can go from 208 pins right down to 33 and even 16 "pins" (actually a 4x4 bump package), even dual core, all with similar IO hardware, and lets face it the processor core is pretty much irrelevant to 99% of programmers who work with C, but learning a new set of IO peripherals is a real pain.
I was a big fan of the SAM3, I even designed a Due-compatible PCB and was keen to start developing code for the Due, but there has been (and still is) almost no information released. If there had been some feedback to the potential users (that's us) I may have hung in there, we'll see what happens with the Due but for the time being I am about to order have ordered 4 LPC Xpresso boards and hit the LPC trail.
Rob